Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003638.1 Corchorus capsularis cultivar CVL-1 contig03646, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 610

Length: 1018
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:805 original size:36 final size:37

Alignment explanation


    Indices: 765--842  Score: 97
    Period size: 37  Copynumber: 2.1  Consensus size: 37

        755 TAAATAAAAA

                     *           *                
        765 TTAAAAGCAGAAACAG-AAAATAAAAA-TATATTTTTT
          1 TTAAAAGCAAAAACAGAAAAAGAAAAATTA-ATTTTTT

                   *      *                      
        801 TTAAAAGGAAAAACGGAAAAAGAAAAATTAATTTTTT
          1 TTAAAAGCAAAAACAGAAAAAGAAAAATTAATTTTTT

                 
        838 TTAAA
          1 TTAAA

        843 GAAAAATCGG


Statistics
Matches: 36,  Mismatches: 4, Indels: 3
        0.84            0.09        0.07

Matches are distributed among these distances:
  36   13  0.36
  37   21  0.58
  38    2  0.06

ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29


Consensus pattern (37 bp):   
TTAAAAGCAAAAACAGAAAAAGAAAAATTAATTTTTT

Found at i:854 original size:36 final size:37

Alignment explanation


    Indices: 781--855  Score: 102
    Period size: 37  Copynumber: 2.1  Consensus size: 37

        771 GCAGAAACAG

                *                                
        781 AAAATAAAAATATATTTTTTTTAAAAGGAAAAACGGA
          1 AAAAGAAAAATATATTTTTTTTAAAAGGAAAAACGGA

                                                   
        818 AAAAGAAAAAT-TAATTTTTTTT-AAA-GAAAAATCGGA
          1 AAAAGAAAAATAT-ATTTTTTTTAAAAGGAAAAA-CGGA

              
        854 AA
          1 AA

        856 CCCTAATTTT


Statistics
Matches: 35,  Mismatches: 1, Indels: 5
        0.85            0.02        0.12

Matches are distributed among these distances:
  35    6  0.17
  36   10  0.29
  37   19  0.54

ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29


Consensus pattern (37 bp):   
AAAAGAAAAATATATTTTTTTTAAAAGGAAAAACGGA
Done.